Man pages sections > man1 > cmtk-groupwise_init

groupwise_init - Affine initialization for groupwise registration

groupwise_init(1) The Computational Morphometry Toolkit groupwise_init(1)

NAME

groupwise_init - Affine initialization for groupwise registration

SYNOPSIS

groupwise_init [options] image0 [image1 ...]

DESCRIPTION

Compute initial affine alignment for a group of input images, which can be used as an input for groupwise registration

OPTIONS

Global Toolkit Options (these are shared by all CMTK tools)

--help
Write list of basic command line options to standard output.
--help-all
Write complete list of basic and advanced command line options to standard output.
--wiki
Write list of command line options to standard output in MediaWiki markup.
--man
Write man page source in 'nroff' markup to standard output.
--version
Write toolkit version to standard output.
--echo
Write the current command line to standard output.
--verbose-level <integer>
Set verbosity level.
--verbose, -v
Increment verbosity level by 1 (deprecated; supported for backward compatibility).
--threads <integer>
Set maximum number of parallel threads (for POSIX threads and OpenMP).

Main Options

--template <string>, -t <string>
Input filename for pre-defined template image. [Default: NONE]
--output-root <string>, -O <string>
Root directory for all output files. [Default: NONE]
--output <string>, -o <string>
Output filename for groupwise registration archive. [Default: groupwise.xforms ]
--output-average <string>
Output filename for registered average image. [Default: average.nii ]
--average-cubic
Use cubic (rather than linear) interpolation for average image.
--no-output-average
Do not write average image.
--align-centers-of-mass
Initially align centers of mass rather than centers of bounding boxes.
--init-scales
Initialize scale factors using first-order moments
--center-template
Center aligned images in template grid field of view.
--outputtype
Scalar data type for the output average image. Supported values: "char", "byte", "short", "ushort", "int", "uint", "float", "double", where the default is "float", or use one of the following:
--char
8 bits, signed
--byte
8 bits, unsigned
--short
16 bits, signed
--ushort
16 bits, unsigned
--int
32 bits signed
--uint
32 bits unsigned
--float
32 bits floating point [This is the default]
--double
64 bits floating point
 

AUTHORS

Torsten Rohlfing, with contributions from Michael P. Hasak, Greg Jefferis, Calvin R. Maurer, Daniel B. Russakoff, and Yaroslav Halchenko

LICENSE

http://www.fsf.org/licensing/licenses/gpl.html

BUGS

Report bugs at http://nitrc.org/projects/cmtk/

ACKNOWLEDGMENTS

CMTK is developed with support from the NIAAA under Grant AA021697, National Consortium on Alcohol and Neurodevelopment in Adolescence (N-CANDA): Data Integration Component. From April 2009 through September 2011, CMTK development and maintenance was supported by the NIBIB under Grant EB008381.
Sep 11 2017 CMTK 3.3.1